{"database":"biostudies-arrayexpress","file_versions":[],"scores":null,"additional":{"submitter":["Richard Barrett-Jolley"],"organism":["Rattus norvegicus"],"full_dataset_link":["https://www.ebi.ac.uk/biostudies/studies/E-MTAB-14688"],"description":["Transcriptomic measurement of the paraventricular nucleus (PVN) after clozapine-N-oxide (CNO) treatment of AVP-hM3Dq-mCherry transgenic rats.  At 120 min after subcutaneous injection of Saline (1 mL/kg, n = 5) or CNO (1 mg/kg, n= 5), rats were deeply anaesthetized with three types of mixed anaesthetic agents (in combination with 0.3 mg/kg of medetomidine, 4.0 mg/kg of midazolam, and 5.0 mg/kg of butorphanol). PVN were isolated with tissue punch and frozen in RNA-later until sequencing."],"repository":["biostudies-arrayexpress"],"sample_protocol":["Growth Protocol - Naturally, in an animal unit. 23-25C, 12hr/12hr light/dark.","Nucleic Acid Extraction - RNA extraction was performed using the RNeasy Fibrous Tissues kit (Qiagen, UK) as per manufacturer’s instructions. Approx. 30mg of tissue was lysed and homogenised using an ultra turrax (IKA Homogeniser, Sigma, UK) in buffer RLT before proteinase K digestion steps, total RNA bound followed by several washing steps and DNase digestion and total RNA eluted. Total RNA integrity was confirmed using the Bioanalyzer (Agilent Technologies, USA). Ribosomal RNA (rRNA) was depleted from RNA samples by using the Ribo-Zero™ rRNA Removal Kit (Epicentre, USA) in accordance with the instructions of the manufacturer.","Sample Treatment - 1mg/ml, CNO applied by injection. Subcutaneous 1ml/Kg or saline control.  2hrs pretreatment.","Library Construction - NEBNext® Ultra II Directional RNA Library Prep Kit for Illumina, so they are paired-end reads but the orientation of the RNA strand is preserved in the first strand","Sample Collection - Rats were euthanised by a Schedule one procedure and the cardiac left ventricle dissected and snap frozen in RNALater.","Sequencing - Illumina Hiseq 4000 and NovaSeq series sequencer  2x150"],"figure_sub":["Organization","MINSEQE Score","Assays and Data","MAGE-TAB Files"],"data_protocol":["Sequence Alignment - raw FASTQ"],"omics_type":["Metabolomics","Unknown","Transcriptomics","Genomics","Proteomics"],"instrument_platform":["Illumina HiSeq 4000"],"study_type":["RNA-seq of coding RNA"],"species":["Rattus norvegicus"],"pubmed_authors":["Richard Barrett-Jolley"],"additional_accession":[]},"is_claimable":false,"name":"Transcriptomic measurement of PVN after CNO treatment of AVP-hM3Dq-mCherry transgenic rats","description":"Transcriptomic measurement of the paraventricular nucleus (PVN) after clozapine-N-oxide (CNO) treatment of AVP-hM3Dq-mCherry transgenic rats.  At 120 min after subcutaneous injection of Saline (1 mL/kg, n = 5) or CNO (1 mg/kg, n= 5), rats were deeply anaesthetized with three types of mixed anaesthetic agents (in combination with 0.3 mg/kg of medetomidine, 4.0 mg/kg of midazolam, and 5.0 mg/kg of butorphanol). PVN were isolated with tissue punch and frozen in RNA-later until sequencing.","dates":{"release":"2026-09-01T00:00:00Z","modification":"2026-09-01T01:00:37.591Z","creation":"2024-12-10T21:55:21.985Z"},"accession":"E-MTAB-14688","cross_references":{"ENA":["ERP166983"],"EFO":["EFO_0002944","EFO_0004170","EFO_0003789","EFO_0004917","EFO_0005518","EFO_0003738","EFO_0004184","EFO_0003969"]}}